This open source project is designed to help researchers automate computer vision tasks; it’s built to reduce as much groundwork as possible so they can focus on their tasks. To explain it simply Cell-Counter is a generic project that wraps computer vision utilities and lets you use them as you see fit in already existing algorithms or new ones, its free to use and easy to expand upon.

As for the specifics Cell-Counter is built on top of a very known library ImageJ. This library lacks some practical features such as apply an algorithm to multiple files, so the idea is using all the potential in ImageJ but still be flexible. Cell-Counter can be used to integrate computer vision into any workflow or to simply obtain local results, the core is designed to be extensible, flexible and it's fully tested for better maintainability.

To illustrate how it can be used the first algorithm published was the Cell-Counter algorithm that lets you count cells given a folder and some configurations, the output of the execution is a CVS file with all the data of the cells on each image, and an output image. Up next you will see each one of the steps taken by the algorithm: